Gene loci information

Transcript annotation

  • This transcript has been annotated as Nucleoside diphosphate kinase 7.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g10920 g10920.t4 TTS g10920.t4 12705679 12705679
chr_1 g10920 g10920.t4 isoform g10920.t4 12705733 12706984
chr_1 g10920 g10920.t4 exon g10920.t4.exon1 12705733 12706591
chr_1 g10920 g10920.t4 cds g10920.t4.CDS1 12705733 12706591
chr_1 g10920 g10920.t4 exon g10920.t4.exon2 12706650 12706984
chr_1 g10920 g10920.t4 cds g10920.t4.CDS2 12706650 12706801
chr_1 g10920 g10920.t4 TSS g10920.t4 12707347 12707347

Sequences

>g10920.t4 Gene=g10920 Length=1194
ATGATGATGGTAAATAATTTAAAATTTATTTAAACTTATACTCTTAACTAAATATTTGTT
TGACAGAATGGATACAATGATTTTTATACATTTTCTTGCGATTGGGAAACTGCAGAGACG
ACACGAAAATTAAATCTTTATTTTTATCCTCGAGATAATTCTATTGAATTATACGATGTA
TGCATGAAACGCATTCTTCTCAAACGCACAGTGACTGAATTATCATTAAATGATATTTAT
TTAAATGCAACATTAACAATCTTCGGTAAGAAAATAATTGTGAGACAATATGGAAATCCT
ATGACAGAACAAAAATTGAGCAAAATTAAACAAAGGACATTTTTAATGATAAAGCCTGAA
GCTCGACAATTTATTGGTGAAATAATTTCAACACTTGAGAAACGCAAATTATACATCAGA
AATCTAAAAATGCTAAAGCTACAATCATTGGCAGCAGTTCAATTTCTCAATCAGAGGAAG
ACACCAGAAAATAAAGTTTCAGCTCTAATGCAGAATTTAACGTCTGGATTAATAACTGTA
TTGGAGATAACAGGTGAAAATGCATATGAACAATTAAAGCATATATGCGGTCCAGAAAAC
TTTGATGAAGCAAAAAATAACTATCCGATTTCATTGCGAGCTCTTTATGGATTTGATGAT
ATTCAATGTGGCGTATTGCTCTCTGATGACTATAATATGAATCTACAAGATCTCGAATAT
TTTTTTCCATCTATGAATGATAAATTAAAAGTTCAAGCTAAATTTATAAAATCTACTTTG
TGCATAATCAAGCCACATGCTATAAAAGAAGGAAATATTGGAGCAATTTTAAAAATGATT
ATTGAAAATGGATTTTCTATAACAGCCATGAAAATGCTTAATTTGTCTCGTTCAAAATGT
GAAACATTTTATGAATTATATAAAGGTGTTGTAGATGATTATGCATCAATGGTCCTGCAA
TTGCAAAGTGGTGCATGTTTAGCTATTGAAGTTCAAGGGAATAATGATGACGGTGTGCAA
AAAGCATTTCGATCTTTGTGTGGACCTAGTGATCCATCAATCGCAAAAATTATACGTCCA
AATACAATACGAGCTAATTTTGGAACTGATAAAATTCTCAATGCTGTACACTGCACTGAC
CTTAGTGAAGATACTCTTTTGGAAATGGAATATATTTTTAAAGAATTAGATTAA

>g10920.t4 Gene=g10920 Length=336
MKRILLKRTVTELSLNDIYLNATLTIFGKKIIVRQYGNPMTEQKLSKIKQRTFLMIKPEA
RQFIGEIISTLEKRKLYIRNLKMLKLQSLAAVQFLNQRKTPENKVSALMQNLTSGLITVL
EITGENAYEQLKHICGPENFDEAKNNYPISLRALYGFDDIQCGVLLSDDYNMNLQDLEYF
FPSMNDKLKVQAKFIKSTLCIIKPHAIKEGNIGAILKMIIENGFSITAMKMLNLSRSKCE
TFYELYKGVVDDYASMVLQLQSGACLAIEVQGNNDDGVQKAFRSLCGPSDPSIAKIIRPN
TIRANFGTDKILNAVHCTDLSEDTLLEMEYIFKELD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10920.t4 CDD cd04412 NDPk7B 197 332 0e+00
9 g10920.t4 Gene3D G3DSA:3.30.70.141 - 48 185 0e+00
8 g10920.t4 Gene3D G3DSA:3.30.70.141 - 194 336 0e+00
3 g10920.t4 PANTHER PTHR43109 NUCLEOSIDE DIPHOSPHATE KINASE 7 2 335 0e+00
1 g10920.t4 Pfam PF00334 Nucleoside diphosphate kinase 50 183 0e+00
2 g10920.t4 Pfam PF00334 Nucleoside diphosphate kinase 197 334 0e+00
7 g10920.t4 SMART SM00562 ndk_5 49 186 2e-07
6 g10920.t4 SMART SM00562 ndk_5 195 336 0e+00
4 g10920.t4 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 49 184 0e+00
5 g10920.t4 SUPERFAMILY SSF54919 Nucleoside diphosphate kinase, NDK 194 335 0e+00

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005524 ATP binding MF
GO:0004550 nucleoside diphosphate kinase activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values